Would I need to programmatically disable this inside the BeanMetaDataFactory instance's implementation (like in ThreadsMetatData.java),
Yes, programmatically. But this would/should be trivial.
e.g. if you take the grouping approach, your impl would already be provided with BeanMetaData instances.
All you would need to do is wrap it with such code:
BeanMetaData bmd = ...;
BeanMetaDataBuilder builder = BeanMetaDataBuilder.create(bmd);
builder.ignoreCreate(); // or which ever lifecycle state you wann ignore